/*
 * commandDesc.cpp
 *
 *  Created on: 2011-11-01
 *      Author: pawel
 */

#include"commandDesc.h";
const std::string commandDesc::optionsDescriptionMessage = "Available options";
const std::string commandDesc::helpMessage		= "help message";
const std::string commandDesc::helpOption		= "help";

const std::string commandDesc::dbFileMessage	= "data base file";
const std::string commandDesc::dbFileOption		= "base";

const std::string commandDesc::queryFileMessage	= "query file";
const std::string commandDesc::queryFileOption	= "query";

const std::string commandDesc::gopenMessage		= "gopen penalty value";
const std::string commandDesc::gopenOption		= "go";

const std::string commandDesc::gextMessage		= "gext penalty value";
const std::string commandDesc::gextOption		= "ge";

const std::string commandDesc::matrixMessage	= "Score matrix file";
const std::string commandDesc::matrixOption		= "matrix";

const std::string commandDesc::outFileMessage	= "out file";
const std::string commandDesc::outFileOption	= "out";

const std::string commandDesc::kTupleMessage	= "k - tuple value (fasta only)";
const std::string commandDesc::kTupleOption		= "k";

const std::string commandDesc::alphabetMessage	= "chosen alphabet";
const std::string commandDesc::alphabetOption	= "alph";

const std::string commandDesc::algorithmMessage	= "chosen algorithm";
const std::string commandDesc::algorithmOption	= "algorithm";

const std::string commandDesc::zScoreMessage	= "Calculating Z socre";
const std::string commandDesc::zScoreOption		= "z";

const std::string commandDesc::wMessage			="W";
const std::string commandDesc::wOption			="w";

const std::string commandDesc::optAlgThreadsMessage	= "Threads of optimal Algorithm";
const std::string commandDesc::optAlgThreadsOption	= "oth";

const std::string commandDesc::heurAlgThreadsMessage	= "Threads of heuristic Algorithm";
const std::string commandDesc::heurAlgThreadsOption		= "hth";



